affxparser

Affymetrix File Parsing SDK

Bioconductor version: 2.8

Package for parsing Affymetrix files (CDF, CEL, CHP, BPMAP, BAR). It provides methods for fast and memory efficient parsing of Affymetrix files using the Affymetrix' Fusion SDK. Both ASCII- and binary-based files are supported. Currently, there are methods for reading chip definition file (CDF) and a cell intensity file (CEL). These files can be read either in full or in part. For example, probe signals from a few probesets can be extracted very quickly from a set of CEL files into a convenient list structure.

Author: Henrik Bengtsson, James Bullard, Robert Gentleman, Kasper Daniel Hansen, Martin Morgan

Maintainer: Kasper Daniel Hansen <khansen at stat.berkeley.edu>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("affxparser")

To cite this package in a publication, start R and enter:

    citation("affxparser")

Documentation

PDF   Reference Manual

Details

biocViews Infrastructure, DataImport
Depends R (>= 2.6.0)
Imports
Suggests R.utils (>= 1.6.3), AffymetrixDataTestFiles
System Requirements
License LGPL (>= 2)
URL
Depends On Me ITALICS, pdInfoBuilder, rMAT, Starr
Imports Me affyILM, AffyTiling, cn.farms, GeneRegionScan, ITALICS, oligo
Suggests Me
Version 1.24.0
Since Bioconductor 1.7 (R-2.2)

Package Downloads

Package Source affxparser_1.24.0.tar.gz
Windows Binary affxparser_1.24.0.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary affxparser_1.24.0.tgz
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